Slc1a4 (solute carrier family 1 member 4)

Gene: Slc1a4 (solute carrier family 1 member 4) Rattus norvegicus

Analyze

Symbol:

Slc1a4

Name:

solute carrier family 1 member 4

RGD ID:

735146

Description:

Enables L-serine transmembrane transporter activity. Involved in L-serine transport. Located in dendrite and neuronal cell body. Human ortholog(s) of this gene implicated in spastic tetraplegia, thin corpus callosum, and progressive microcephaly. Orthologous to human SLC1A4 (solute carrier family 1 member 4); PARTICIPATES IN argininosuccinic aciduria pathway; carbamoyl phosphate synthetase I deficiency pathway; citrullinemia pathway; INTERACTS WITH (+)-schisandrin B; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

ASCT1; neutral amino acid transporter A; neutral amino acid transporter ASCT1; solute carrier family 1 (glutamate/neutral amino acid transporter), member 4

RGD Orthologs

Alliance Genes

More Info

more info ...

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	14	98,718,646 - 98,761,672 (-)	NCBI		GRCr8
mRatBN7.2	14	94,530,801 - 94,560,190 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	14	94,529,084 - 94,560,418 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	14	98,877,394 - 98,907,056 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	14	100,117,664 - 100,147,323 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	14	96,585,031 - 96,614,695 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	14	104,582,884 - 104,612,417 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	14	104,581,190 - 104,612,597 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	14	104,317,800 - 104,345,829 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	14	101,123,740 - 101,153,790 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	14	101,142,950 - 101,173,001 (-)	NCBI
Celera	14	93,550,109 - 93,578,743 (-)	NCBI		Celera
Cytogenetic Map	14	q22	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autism spectrum disorder (ISO)

genetic disease (ISO)

microcephaly (ISO)

spastic tetraplegia, thin corpus callosum, and progressive microcephaly (ISO,ISS)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

(1->4)-beta-D-glucan (ISO)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (EXP,ISO)

2,2',4,4',5,5'-hexachlorobiphenyl (ISO)

2,3,7,8-tetrachlorodibenzodioxine (EXP,ISO)

2,3,7,8-Tetrachlorodibenzofuran (EXP)

2,4-dibromophenyl 2,4,5-tribromophenyl ether (ISO)

3,3',4,4',5-pentachlorobiphenyl (EXP)

3,4-methylenedioxymethamphetamine (ISO)

3-chloropropane-1,2-diol (EXP)

4-hydroxyphenyl retinamide (ISO)

6-propyl-2-thiouracil (EXP)

acrylamide (ISO)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

AM-251 (ISO)

andrographolide (ISO)

aristolochic acid A (ISO)

arsenite(3-) (ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

beta-naphthoflavone (ISO)

bisphenol A (EXP,ISO)

bromobenzene (EXP)

cadmium dichloride (ISO)

cannabidiol (ISO)

carbamazepine (ISO)

chlordecone (ISO)

chloroacetaldehyde (ISO)

chlorpyrifos (EXP,ISO)

cidofovir anhydrous (ISO)

cisplatin (ISO)

clodronic acid (ISO)

clofibrate (ISO)

cobalt dichloride (EXP)

cocaine (EXP)

copper atom (ISO)

copper(0) (ISO)

copper(II) sulfate (ISO)

coumestrol (ISO)

crocidolite asbestos (ISO)

Cuprizon (EXP)

cyclosporin A (EXP,ISO)

dexamethasone (ISO)

diazinon (ISO)

dibutyl phthalate (ISO)

diclofenac (ISO)

diethyl maleate (ISO)

dioxygen (ISO)

dorsomorphin (ISO)

endosulfan (EXP)

Enterolactone (ISO)

ethanol (EXP,ISO)

ethyl methanesulfonate (ISO)

ethylparaben (ISO)

fluoranthene (ISO)

formaldehyde (ISO)

FR900359 (ISO)

genistein (ISO)

ibuprofen (ISO)

indole-3-methanol (EXP)

lamivudine (ISO)

lead diacetate (ISO)

lucanthone (ISO)

mercury dibromide (ISO)

metformin (EXP)

methoxychlor (EXP)

methyl methanesulfonate (ISO)

methylmercury chloride (ISO)

mitomycin C (ISO)

motexafin gadolinium (ISO)

N(4)-hydroxycytidine (ISO)

N-methyl-4-phenylpyridinium (ISO)

N-nitrosodiethylamine (ISO)

ochratoxin A (ISO)

orphenadrine (EXP)

paracetamol (EXP,ISO)

paraquat (EXP)

perfluorononanoic acid (ISO)

perfluorooctane-1-sulfonic acid (EXP,ISO)

phenformin (EXP)

phenobarbital (ISO)

phenylmercury acetate (ISO)

pirinixic acid (ISO)

potassium chromate (ISO)

potassium dichromate (ISO)

progesterone (ISO)

propiconazole (ISO)

prothioconazole (ISO)

resveratrol (ISO)

rotenone (EXP)

S-(1,2-dichlorovinyl)-L-cysteine (ISO)

SB 431542 (ISO)

silicon dioxide (ISO)

sinapic acid (ISO)

sodium arsenite (ISO)

succimer (ISO)

sunitinib (ISO)

tert-butyl hydroperoxide (ISO)

testosterone (ISO)

tetrachloromethane (EXP,ISO)

tetracycline (ISO)

thapsigargin (ISO)

thifluzamide (ISO)

thioacetamide (EXP)

toluene (EXP)

trichloroethene (EXP)

Triptolide (ISO)

trovafloxacin (ISO)

tunicamycin (ISO)

valproic acid (ISO)

vanadium atom (ISO)

vanadium(0) (ISO)

vinclozolin (EXP)

vorinostat (ISO)

zidovudine (ISO)

zinc acetate (ISO)

zinc atom (ISO)

zinc(0) (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

chloride transmembrane transport (IEA)

cognition (ISO)

hydroxyproline transport (ISO)

L-alanine import across plasma membrane (ISO)

L-alanine transport (ISO)

L-aspartate import across plasma membrane (ISO)

L-cystine transport (ISO)

L-glutamate transmembrane transport (IBA)

L-serine import across plasma membrane (ISO)

L-serine transport (IBA,IDA,IMP,ISO)

proline transmembrane transport (IEA)

proline transport (ISO)

serine import across plasma membrane (ISO)

threonine transport (ISO)

Cellular Component

centrosome (ISO)

dendrite (IDA)

intermediate filament (ISO)

membrane (ISO)

neuronal cell body (IDA)

plasma membrane (IBA,ISO)

Molecular Function

chloride channel activity (ISO)

L-alanine transmembrane transporter activity (IBA,ISO)

L-aspartate transmembrane transporter activity (IBA,ISO)

L-cystine transmembrane transporter activity (ISO)

L-hydroxyproline transmembrane transporter activity (ISO)

L-proline transmembrane transporter activity (ISO)

L-serine transmembrane transporter activity (IBA,IDA,IMP,ISO)

L-threonine transmembrane transporter activity (IBA,ISO)

neutral L-amino acid transmembrane transporter activity (ISO)

symporter activity (IEA)

Molecular Pathway Annotations Click to see Annotation Detail View

argininosuccinic aciduria pathway (ISO)

carbamoyl phosphate synthetase I deficiency pathway (ISO)

citrullinemia pathway (ISO)

hyperargininemia pathway (ISO)

ornithine carbamoyltransferase deficiency pathway (ISO)

urea cycle pathway (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
3.	SMPDB Annotation Import Pipeline	Pipeline to import SMPDB annotations from SMPDB into RGD
4.	GOA pipeline	RGD automated data pipeline
5.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
6.	Ontogeny and localization of the neutral amino acid transporter ASCT1 in rat brain.	Weiss MD, etal., Brain Res Dev Brain Res. 2001 Oct 24;130(2):183-90.
7.	Characterization of rapid and high-affinity uptake of L-serine in neurons and astrocytes in primary culture.	Yamamoto T, etal., FEBS Lett. 2003 Jul 31;548(1-3):69-73.
8.	Functional identification of ASCT1 neutral amino acid transporter as the predominant system for the uptake of L-serine in rat neurons in primary culture.	Yamamoto T, etal., Neurosci Res 2004 May;49(1):101-11.

Additional References at PubMed

PMID:8101838	PMID:8340364	PMID:8910405	PMID:10933718	PMID:12533615	PMID:14502423	PMID:14622120	PMID:16897601	PMID:19581412	PMID:19946888	PMID:20458337	PMID:25231108
PMID:26041762	PMID:27272177

Genomics

Comparative Map Data

Slc1a4
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	14	98,718,646 - 98,761,672 (-)	NCBI		GRCr8
mRatBN7.2	14	94,530,801 - 94,560,190 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	14	94,529,084 - 94,560,418 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	14	98,877,394 - 98,907,056 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	14	100,117,664 - 100,147,323 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	14	96,585,031 - 96,614,695 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	14	104,582,884 - 104,612,417 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	14	104,581,190 - 104,612,597 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	14	104,317,800 - 104,345,829 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	14	101,123,740 - 101,153,790 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	14	101,142,950 - 101,173,001 (-)	NCBI
Celera	14	93,550,109 - 93,578,743 (-)	NCBI		Celera
Cytogenetic Map	14	q22	NCBI

SLC1A4
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	2	64,988,479 - 65,023,865 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	2	64,988,477 - 65,023,865 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	2	65,215,613 - 65,250,999 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	65,070,098 - 65,104,503 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	2	65,128,244 - 65,162,648	NCBI
Celera	2	65,061,957 - 65,097,385 (+)	NCBI		Celera
Cytogenetic Map	2	p14	NCBI
HuRef	2	64,949,345 - 64,984,802 (+)	NCBI		HuRef
CHM1_1	2	65,146,566 - 65,181,989 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	2	64,998,100 - 65,033,490 (+)	NCBI		T2T-CHM13v2.0

Slc1a4
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	11	20,252,180 - 20,282,713 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	11	20,252,180 - 20,282,713 (-)	Ensembl		GRCm39 Ensembl
GRCm38	11	20,302,180 - 20,332,713 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	11	20,302,180 - 20,332,713 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	11	20,202,183 - 20,232,716 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	11	20,202,208 - 20,232,674 (-)	NCBI		MGSCv36	mm8
Celera	11	22,451,521 - 22,482,559 (-)	NCBI		Celera
Cytogenetic Map	11	A3.1	NCBI
cM Map	11	12.97	NCBI

Slc1a4
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955424	19,474,082 - 19,499,592 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955424	19,474,082 - 19,499,592 (-)	NCBI	ChiLan1.0	ChiLan1.0

SLC1A4
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	12	61,377,645 - 61,412,341 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	2A	61,380,650 - 61,416,291 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	2A	65,051,025 - 65,086,917 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	2A	66,177,835 - 66,212,249 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	2A	66,176,925 - 66,209,615 (+)	Ensembl	panpan1.1		panPan2

SLC1A4
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	10	64,482,840 - 64,508,288 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	10	64,483,060 - 64,505,747 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	10	64,369,739 - 64,394,932 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	10	65,493,157 - 65,518,318 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	10	65,492,613 - 65,518,315 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	10	65,172,083 - 65,197,216 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	10	65,480,918 - 65,503,851 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	10	65,774,013 - 65,799,174 (+)	NCBI		UU_Cfam_GSD_1.0

Slc1a4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024406292	18,780,757 - 18,810,279 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936491	9,760,952 - 9,790,536 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936491	9,761,002 - 9,790,535 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SLC1A4
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	3	76,938,107 - 76,970,508 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	3	76,938,102 - 76,970,519 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	80,747,982 - 80,754,397 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SLC1A4
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	14	41,999,216 - 42,032,326 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	14	41,999,064 - 42,032,288 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666045	69,848,255 - 69,881,833 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Slc1a4
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624762	8,532,063 - 8,558,994 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624762	8,532,550 - 8,558,912 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Slc1a4
216 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	424
Count of miRNA genes:	235
Interacting mature miRNAs:	276
Transcripts:	ENSRNOT00000007002
Prediction methods:	Microtar, Miranda, Rnahybrid
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
2317879	Alcrsp27	Alcohol response QTL 27	3.3	0.63	response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	14	56631369	101631369	Rat
4889951	Bss92	Bone structure and strength QTL 92	3.9		tibia area (VT:1000281)	tibia-fibula cortical bone total cross-sectional area (CMO:0001721)	14	82057471	95876975	Rat
9590294	Uminl4	Urine mineral level QTL 4	5.66	0.001	urine mineral amount (VT:0015086)	urine electrolyte level (CMO:0000593)	14	55624247	100624247	Rat
631523	Pia13	Pristane induced arthritis QTL 13	3.3		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	14	40793460	98037301	Rat
631839	Niddm37	Non-insulin dependent diabetes mellitus QTL 37	3.37		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	14	11030622	95876975	Rat
634328	Hc5	Hypercalciuria QTL 5	2.3		urine calcium amount (VT:0002985)	urine calcium excretion rate (CMO:0000763)	14	58184885	103184885	Rat
9589034	Epfw11	Epididymal fat weight QTL 11	6	0.001	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	14	55624247	100624247	Rat
1300136	Rf22	Renal function QTL 22	3.9		renal blood flow trait (VT:2000006)	absolute change in renal vascular resistance (CMO:0001900)	14	42262529	95023211	Rat
1549834	Scl45	Serum cholesterol level QTL 45	5.8		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	14	50023211	95023211	Rat
1582201	Sffal2	Serum free fatty acids level QTL 2	4	0.0002	blood free fatty acid amount (VT:0001553)	serum free fatty acids level (CMO:0000547)	14	92553886	95876975	Rat
1582250	Gluco26	Glucose level QTL 26	3.3	0.0009	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	14	73415323	95876975	Rat
1582259	Gluco23	Glucose level QTL 23	3.1	0.0008	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	14	70053989	104886043	Rat
1641900	Alcrsp11	Alcohol response QTL 11			alcohol metabolism trait (VT:0015089)	blood ethanol level (CMO:0000535)	14	70053989	104886043	Rat
631213	Bw60	Body weight QTL60	4.51		retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	14	79950921	95876975	Rat
2300197	Scl59	Serum cholesterol level QTL 59			blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	14	55147478	100147478	Rat

Markers in Region

Slc1a4

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	14	94,530,107 - 94,531,106 (+)	MAPPER	mRatBN7.2
Rnor_6.0	14	104,582,191 - 104,583,189	NCBI	Rnor6.0
Rnor_5.0	14	104,317,107 - 104,318,105	UniSTS	Rnor5.0
Celera	14	93,549,416 - 93,550,414	UniSTS
Cytogenetic Map	14	q22	UniSTS

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	3	20	24	24		24			74	17	32	11
Low		23	33	17	19	17	7	10		18	9		7
Below cutoff							1	1					1

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_198763	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063273236	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AB103401	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473996	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ210448	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000014	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	LC035076	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000007002 ⟹ ENSRNOP00000007002

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	14	94,529,084 - 94,560,418 (-)	Ensembl
Rnor_6.0 Ensembl	14	104,581,190 - 104,612,597 (-)	Ensembl

RefSeq Acc Id:

NM_198763 ⟹ NP_942058

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	14	98,732,167 - 98,761,562 (-)	NCBI
mRatBN7.2	14	94,530,801 - 94,560,190 (-)	NCBI
Rnor_6.0	14	104,582,884 - 104,612,417 (-)	NCBI
Rnor_5.0	14	104,317,800 - 104,345,829 (-)	NCBI
RGSC_v3.4	14	101,123,740 - 101,153,790 (-)	RGD
Celera	14	93,550,109 - 93,578,743 (-)	RGD

Sequence:

show sequence

GGCGGGCAGCGACATGGAGGAGACCAACGGATACCTCGACGGCGCCCAGGCTCAGCCTGCGGCC
CGTCCCCGAACGCCCGAGACGGGGACGAGCAAAGCGCAGCGCTGTGCTAGCTTTTTTCGGCGCA
ACGCGCTGGTGCTGCTCACCGTGTCGGGGGTGTTGGCGGGCGCCGGCATGGGCGCGGCGCTTCG
CGGGCTGCAGCTCACCCGCACGCAAATCACTTACCTGGCCTTCCCGGGCGAGATGCTGCTCCGT
ATGCTGCGCATGATCATCCTACCGCTGGTGGTTTGCAGTCTGGTGTCGGGCGCCGCCTCCCTGG
ACGCCAGCTCCCTCGGGCGTCTGGGTGGCATCGCTGTTGCTTACTTCGGCCTCACCACGCTGAG
TGCCTCTGCGCTCGCTGTTGCTCTGGCGTTCATCATCAAGCCAGGAGTGGGCGCGCAGACCCTT
CATTCCAGCAGCCTGGGGCTGGAGAACTCAGAACCTCCTCCAGTCTCCAAAGAGACAGTGGACT
CTTTCCTGGATTTACTCAGAAACCTGTTCCCTTCCAATCTTGTGGTTGCCGCATTCTCTACGTC
TGCAACCAGTTACACAGTGGTCGTCCATAACTCCAGCTTGGGGAACGTGACCAAAGAGAAGATC
CCCGTCGTCACTGATGTGAAAGGGATGAACATCTTAGGACTGGTCCTTTTTGCCCTGATGTTAG
GAGTGGCTCTAAAGAAGCTAGGCCCCGAGGGAGACGAGCTCATCCGATTCTTCAATTCCTTCAA
TGAGGCAACAATGGTGTTGGTGTCGTGGATCATGTGGTACGTACCTATCGGCATCATGTTCCTG
ATCGGAAGCAAGATTGTGGAAATGCAGGACCTCATCGTGCTCGTGACTAGCCTCGGGAAATACA
TCTTCGCCTCTATACTGGGCCATGTTATCCATGGAGGAATTGTTCTGCCTCTTGTCTATTTTGC
TTTTACGAGGAAAAACCCGTTCACGTTCCTCCTGGGCCTCCTCACCCCGTTTGCGACGGCTTTT
GCGACCTGTTCCAGCTCAGCAACCCTTCCGTCTATGATGAAGTGCATCGAGGAAAACAATGGCG
TGGACAAGAGGATCAGCAGGTTCATCCTTCCCATCGGGGCCACAGTCAACATGGATGGGGCCGC
CATCTTCCAGTGTGTGGCTGCAGTGTTCATCGCCCAGCTCAACAACGTGGACCTGAACGCGGGA
CAGATTTTCACCATTCTGGTGACCGCCACCGCATCCAGTGTTGGAGCAGCGGGTGTGCCGGCTG
GAGGGGTCCTCACCATTGCCATCATCCTAGAGGCCATTGGACTGCCCACGAACGACCTCTCTCT
GATCCTGGCTGTGGACTGGATTGTGGACAGGACCACCACTGTGGTGAACGTGGAAGGGGATGCC
CTGGGAGCTGGGATCCTCAACCACCTGAATCAGAGGACAGTGAAGAAGGGTGAGCAGGAGCTGC
AAGAAGTGAAGGTGGAAGCCATTCCCAATTCCAAGTCTGAGGAGGAGACGTCGCCCCTGGTGAC
ACACCAGAACCGGGCAGGCCCTGTAGCCGTTGCTCCTGAACTCGAATCCAAGGAGTCAGTGCTG
TGATTGGGCTGGGTCTTGGGCCATCCTGCTAGTACCAGCGACCTACCCTGGTAGCCTGCCCCAC
TGACGTGGGCATGGCCCTCACAGACTTTTCGTCTCCCAAGGAATGCGTTGGCCCAATCACTAAT
CTGAGAGTGACCTCTCAGCACAGTCATGGAGCTCCCAAGCCAGGACTGCTTACCGAGGACTAGA
ACACTCTGACCTTTGTCTTGATCCATGTCTCAATGGAGCTGTGGATTCACCTTGACTCTGTTTG
TGAACCCCCTTGAGCTGCCAGACCTCAGGGATCCCAGGTTCATGGAGGCCTGGGATAAAGGTCC
GGGTTGGGGTGGGGGTGCGGATGGATTCTTCAGTGTCTCCCGGGAGCTCTGCATCTGGTGCTTT
CTGGGCGAGCCA

hide sequence

RefSeq Acc Id:

XM_063273236 ⟹ XP_063129306

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	14	98,718,646 - 98,761,672 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_942058	(Get FASTA)	NCBI Sequence Viewer
	XP_063129306	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	BAC99093	(Get FASTA)	NCBI Sequence Viewer
	BAR72489	(Get FASTA)	NCBI Sequence Viewer
	EDL97938	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000007002
	ENSRNOP00000007002.2

RefSeq Acc Id:

NP_942058 ⟸ NM_198763

- UniProtKB:

Q76GL9 (UniProtKB/TrEMBL), A6JQ21 (UniProtKB/TrEMBL), A0A0F7R5I4 (UniProtKB/TrEMBL), F7F9N4 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MEETNGYLDGAQAQPAARPRTPETGTSKAQRCASFFRRNALVLLTVSGVLAGAGMGAALRGLQL
TRTQITYLAFPGEMLLRMLRMIILPLVVCSLVSGAASLDASSLGRLGGIAVAYFGLTTLSASAL
AVALAFIIKPGVGAQTLHSSSLGLENSEPPPVSKETVDSFLDLLRNLFPSNLVVAAFSTSATSY
TVVVHNSSLGNVTKEKIPVVTDVKGMNILGLVLFALMLGVALKKLGPEGDELIRFFNSFNEATM
VLVSWIMWYVPIGIMFLIGSKIVEMQDLIVLVTSLGKYIFASILGHVIHGGIVLPLVYFAFTRK
NPFTFLLGLLTPFATAFATCSSSATLPSMMKCIEENNGVDKRISRFILPIGATVNMDGAAIFQC
VAAVFIAQLNNVDLNAGQIFTILVTATASSVGAAGVPAGGVLTIAIILEAIGLPTNDLSLILAV
DWIVDRTTTVVNVEGDALGAGILNHLNQRTVKKGEQELQEVKVEAIPNSKSEEETSPLVTHQNR
AGPVAVAPELESKESVL

hide sequence

RefSeq Acc Id:

ENSRNOP00000007002 ⟸ ENSRNOT00000007002

RefSeq Acc Id:	XP_063129306 ⟸ XM_063273236
- Peptide Label:	isoform X1

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q76GL9-F1-model_v2	AlphaFold	Q76GL9	1-529	view protein structure

Transcriptome

eQTL		View at Phenogen
WGCNA		View at Phenogen
Tissue/Strain Expression		View at Phenogen

Promoters

RGD ID:

13699510

Promoter ID:

EPDNEW_R10034

Type:

initiation region

Name:

Slc1a4_1

Description:

solute carrier family 1 member 4

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	14	104,612,648 - 104,612,708	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:735146	AgrOrtholog
BioCyc Gene	G2FUF-14870	BioCyc
Ensembl Genes	ENSRNOG00000005248	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000007002	ENTREZGENE
	ENSRNOT00000007002.6	UniProtKB/TrEMBL
Gene3D-CATH	1.10.3860.10	UniProtKB/TrEMBL
InterPro	Na-dicarbo_symporter_sf	UniProtKB/TrEMBL
	Na-dicarboxylate_symporter	UniProtKB/TrEMBL
	Na-dicarboxylate_symporter_CS	UniProtKB/TrEMBL
KEGG Report	rno:305540	UniProtKB/TrEMBL
NCBI Gene	305540	ENTREZGENE
PANTHER	NEUTRAL AMINO ACID TRANSPORTER A	UniProtKB/TrEMBL
	SODIUM/DICARBOXYLATE SYMPORTER-RELATED	UniProtKB/TrEMBL
Pfam	SDF	UniProtKB/TrEMBL
PhenoGen	Slc1a4	PhenoGen
PRINTS	EDTRNSPORT	UniProtKB/TrEMBL
PROSITE	NA_DICARBOXYL_SYMP_1	UniProtKB/TrEMBL
	NA_DICARBOXYL_SYMP_2	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000005248	RatGTEx
Superfamily-SCOP	SSF118215	UniProtKB/TrEMBL
UniProt	A0A0F7R5I4	ENTREZGENE, UniProtKB/TrEMBL
	A6JQ21	ENTREZGENE, UniProtKB/TrEMBL
	F7F9N4	ENTREZGENE, UniProtKB/TrEMBL
	Q76GL9	ENTREZGENE
UniProt Secondary	Q76GL9	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-02-25	Slc1a4	solute carrier family 1 member 4	Slc1a4	solute carrier family 1 (glutamate/neutral amino acid transporter), member 4	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2004-09-10	Slc1a4	solute carrier family 1 (glutamate/neutral amino acid transporter), member 4			Symbol and Name status set to approved	1299863	APPROVED

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - MGI

Imported Disease Annotations - OMIM

Imported Annotations - SMPDB

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Imported Disease Annotations - ClinVar

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Imported Disease Annotations - OMIM

Imported Annotations - SMPDB